miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
620 3' -65.3 AC_000017.1 + 4112 0.66 0.194819
Target:  5'- uGCGCGCGCGGuaGGCccGGGA---CCAGCg -3'
miRNA:   3'- gCGCGCGCGUC--CCG--CCCUcggGGUUG- -5'
620 3' -65.3 AC_000017.1 + 10374 0.66 0.189807
Target:  5'- gGgGCcaGCGUAGGGUGgccGGGGCUCCGGg -3'
miRNA:   3'- gCgCG--CGCGUCCCGC---CCUCGGGGUUg -5'
620 3' -65.3 AC_000017.1 + 8670 0.66 0.180122
Target:  5'- gCGCGCGgGCAGGaGCuGGuGCUgCGcACg -3'
miRNA:   3'- -GCGCGCgCGUCC-CGcCCuCGGgGU-UG- -5'
620 3' -65.3 AC_000017.1 + 28736 0.66 0.170879
Target:  5'- aCGUGUGCGCAGcaGGCGGcaAGCCUaaGACa -3'
miRNA:   3'- -GCGCGCGCGUC--CCGCCc-UCGGGg-UUG- -5'
620 3' -65.3 AC_000017.1 + 19150 0.66 0.170879
Target:  5'- uCGCgGCGUGCuGGacCGGG-GCCCCAc- -3'
miRNA:   3'- -GCG-CGCGCGuCCc-GCCCuCGGGGUug -5'
620 3' -65.3 AC_000017.1 + 16279 0.67 0.149603
Target:  5'- cCGcCGCGCGUuGGGCGGcAGUgCCGGg -3'
miRNA:   3'- -GC-GCGCGCGuCCCGCCcUCGgGGUUg -5'
620 3' -65.3 AC_000017.1 + 6562 0.67 0.141788
Target:  5'- uGCuCGCGCaAGGGCGGccGCCUCuGCu -3'
miRNA:   3'- gCGcGCGCG-UCCCGCCcuCGGGGuUG- -5'
620 3' -65.3 AC_000017.1 + 16508 0.68 0.130764
Target:  5'- -uUGCGCGgGGGGCGGGuGCgCaCgGGCa -3'
miRNA:   3'- gcGCGCGCgUCCCGCCCuCG-G-GgUUG- -5'
620 3' -65.3 AC_000017.1 + 18666 0.69 0.112279
Target:  5'- aCGCGCG-GCuAGGGCGGGuuAcaacaacggcggacgGCCCUGGCa -3'
miRNA:   3'- -GCGCGCgCG-UCCCGCCC--U---------------CGGGGUUG- -5'
620 3' -65.3 AC_000017.1 + 16057 0.69 0.108055
Target:  5'- uGUGCGCGCcccaGGGGCGcGGuaguGCCCgCGcACg -3'
miRNA:   3'- gCGCGCGCG----UCCCGC-CCu---CGGG-GU-UG- -5'
620 3' -65.3 AC_000017.1 + 12701 0.69 0.108055
Target:  5'- gCGCGCGCagcaGCAGGGCaaccuGGGCUCCAu- -3'
miRNA:   3'- -GCGCGCG----CGUCCCGcc---CUCGGGGUug -5'
620 3' -65.3 AC_000017.1 + 8540 0.69 0.0995
Target:  5'- cCGCGCG-GC-GGGCGGuGGGCCgCGGg -3'
miRNA:   3'- -GCGCGCgCGuCCCGCC-CUCGGgGUUg -5'
620 3' -65.3 AC_000017.1 + 11484 0.7 0.084275
Target:  5'- cCGCGCGCGCAcacGUGGcGGCCgCCGACc -3'
miRNA:   3'- -GCGCGCGCGUcc-CGCCcUCGG-GGUUG- -5'
620 3' -65.3 AC_000017.1 + 8383 0.72 0.056932
Target:  5'- cCGCG-GCGuCAGGucagGCGGGAGCUCCuGCa -3'
miRNA:   3'- -GCGCgCGC-GUCC----CGCCCUCGGGGuUG- -5'
620 3' -65.3 AC_000017.1 + 23942 0.74 0.045397
Target:  5'- gGCGCGCGgGGGGCGGcGGCgaCGGCg -3'
miRNA:   3'- gCGCGCGCgUCCCGCCcUCGggGUUG- -5'
620 3' -65.3 AC_000017.1 + 6667 0.74 0.041688
Target:  5'- aGCGCGCGCucguauGGGUugaguGGGGGaCCCCAugGCa -3'
miRNA:   3'- gCGCGCGCGu-----CCCG-----CCCUC-GGGGU--UG- -5'
620 3' -65.3 AC_000017.1 + 12260 0.75 0.035038
Target:  5'- aGCGCGCGCGGGuGCcaccgccagcccaGGuccGGCCCCAGCu -3'
miRNA:   3'- gCGCGCGCGUCC-CG-------------CCc--UCGGGGUUG- -5'
620 3' -65.3 AC_000017.1 + 22731 0.97 0.000514
Target:  5'- uCGCGCGCGCAGGGCGGaGGCCCCAACu -3'
miRNA:   3'- -GCGCGCGCGUCCCGCCcUCGGGGUUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.